Plant Circular RNA Database

Detail information of AT3G55800_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT3G55800_circ_g.6
					
						ID in PlantcircBase
						ath_circ_027737
					
						Alias
						3:20710060-20710906
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 20710060-20710906  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G55800						
					
						Parent gene annotation
						
							Sedoheptulose-1,7-bisphosphatase, chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G55800_circ_g.1 AT3G55800_circ_g.2 AT3G55800_circ_g.3 AT3G55800_circ_g.4 AT3G55800_circ_g.5 AT3G55800_circ_g.7 AT3G55800_circ_g.8 AT3G55800_circ_g.9 AT3G55800_circ_g.10 AT3G55800_circ_g.11 AT3G55800_circ_g.12 AT3G55800_circ_g.13 AT3G55800_circ_g.14 AT3G55800_circ_g.15 AT3G55800_circ_g.16 AT3G55800_circ_g.17 AT3G55800_circ_g.18 AT3G55800_circ_g.19 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT3G55800.1:4

General Information
CircRNA Name	AT3G55800_circ_g.6
ID in PlantcircBase	ath_circ_027737
Alias	3:20710060-20710906
Organism	Arabidpsis thaliana
Position	chr3: 20710060-20710906 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G55800
Parent gene annotation	Sedoheptulose-1,7-bisphosphatase, chloroplastic
Parent gene strand	+
Alternative splicing	AT3G55800_circ_g.1 AT3G55800_circ_g.2 AT3G55800_circ_g.3 AT3G55800_circ_g.4 AT3G55800_circ_g.5 AT3G55800_circ_g.7 AT3G55800_circ_g.8 AT3G55800_circ_g.9 AT3G55800_circ_g.10 AT3G55800_circ_g.11 AT3G55800_circ_g.12 AT3G55800_circ_g.13 AT3G55800_circ_g.14 AT3G55800_circ_g.15 AT3G55800_circ_g.16 AT3G55800_circ_g.17 AT3G55800_circ_g.18 AT3G55800_circ_g.19
Support reads	2
Tissues	leaf
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT3G55800.1:4

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							GAAATGGCAGCATGTAAAGGAGACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAAC
TTAAGAGCCACATTCGACAACTCCGAATACAGCAAGgaagagtttttggcacaagcaactcctg
acaagggattgagaactttgctgatgtgtatgggagaagcattgagaacaatagcttttaaagt
tagaacag

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 591
Transcript exons: 20710060-20710245,20710337-20710418,20710509-20710730,20
710806-20710906
GAAGAGTTTTTGGCACAAGCAACTCCTGACAAGGGATTGAGAACTTTGCTGATGTGTATGGGAG
AAGCATTGAGAACAATAGCTTTTAAAGTTAGAACAGCTTCTTGCGGTGGAACAGCTTGTGTTAA
TTCCTTTGGTGATGAACAACTCGCTGTTGATATGCTTGCTGATAAGCTTCTCTTTGAGGCTTTG
CAATACTCGCATGTGTGCAAGTATGCTTGCTCTGAAGAAGTACCTGAGCTTCAAGACATGGGAG
GTCCAGTGGAAGGTGGGTTTAGTGTTGCGTTTGATCCATTGGATGGATCAAGCATTGTGGATAC
AAATTTCACTGTGGGAACCATATTCGGTGTTTGGCCTGGAGACAAGTTAACCGGAATCACTGGA
GGAGATCAAGTGGCTGCAGCCATGGGAATCTACGGTCCACGAACCACTTATGTTTTGGCTGTTA
AGGGCTTTCCAGGAACTCATGAGTTCTTGCTTCTTGATGAAGGGAAATGGCAGCATGTAAAGGA
GACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAACTTAAGAGCCACATTCGACAAC
TCCGAATACAGCAAG
						
					

						Genomic sequence
						
							GAAGAGTTTTTGGCACAAGCAACTCCTGACAAGGGATTGAGAACTTTGCTGATGTGTATGGGAG
AAGCATTGAGAACAATAGCTTTTAAAGTTAGAACAGCTTCTTGCGGTGGAACAGCTTGTGTTAA
TTCCTTTGGTGATGAACAACTCGCTGTTGATATGCTTGCTGATAAGCTTCTCTTTGAGGTTTTT
TGTTACATTTTGAATTAACTTATGTCATAAGCTTTGTATCAGAAAAATGGTTCATTAGGTTTTG
ATTTGTGTATTGGTTTTATAGGCTTTGCAATACTCGCATGTGTGCAAGTATGCTTGCTCTGAAG
AAGTACCTGAGCTTCAAGACATGGGAGGTCCAGTGGAAGGTTGGTTTTACATAAACTTAACTAA
CATTTCCGCTTCTTTAAATCGCGCGAAAAATAGTTATCGAAAGAATATGAAATTTATTTGGACA
GGTGGGTTTAGTGTTGCGTTTGATCCATTGGATGGATCAAGCATTGTGGATACAAATTTCACTG
TGGGAACCATATTCGGTGTTTGGCCTGGAGACAAGTTAACCGGAATCACTGGAGGAGATCAAGT
GGCTGCAGCCATGGGAATCTACGGTCCACGAACCACTTATGTTTTGGCTGTTAAGGGCTTTCCA
GGAACTCATGAGTTCTTGCTTCTTGATGAAGGTTTTGGTCTAGTCCTGTTTTATCAAGATTCCT
TCTTTGGTAAGCTTTTAAACTAAGCTCAAAATTTTGCCTCAGGGAAATGGCAGCATGTAAAGGA
GACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAACTTAAGAGCCACATTCGACAAC
TCCGAATACAGCAAG
						
					

			
		

Sequences
Splice junction sequence	GAAATGGCAGCATGTAAAGGAGACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAAC TTAAGAGCCACATTCGACAACTCCGAATACAGCAAGgaagagtttttggcacaagcaactcctg acaagggattgagaactttgctgatgtgtatgggagaagcattgagaacaatagcttttaaagt tagaacag
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 591 Transcript exons: 20710060-20710245,20710337-20710418,20710509-20710730,20 710806-20710906 GAAGAGTTTTTGGCACAAGCAACTCCTGACAAGGGATTGAGAACTTTGCTGATGTGTATGGGAG AAGCATTGAGAACAATAGCTTTTAAAGTTAGAACAGCTTCTTGCGGTGGAACAGCTTGTGTTAA TTCCTTTGGTGATGAACAACTCGCTGTTGATATGCTTGCTGATAAGCTTCTCTTTGAGGCTTTG CAATACTCGCATGTGTGCAAGTATGCTTGCTCTGAAGAAGTACCTGAGCTTCAAGACATGGGAG GTCCAGTGGAAGGTGGGTTTAGTGTTGCGTTTGATCCATTGGATGGATCAAGCATTGTGGATAC AAATTTCACTGTGGGAACCATATTCGGTGTTTGGCCTGGAGACAAGTTAACCGGAATCACTGGA GGAGATCAAGTGGCTGCAGCCATGGGAATCTACGGTCCACGAACCACTTATGTTTTGGCTGTTA AGGGCTTTCCAGGAACTCATGAGTTCTTGCTTCTTGATGAAGGGAAATGGCAGCATGTAAAGGA GACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAACTTAAGAGCCACATTCGACAAC TCCGAATACAGCAAG
Genomic sequence	GAAGAGTTTTTGGCACAAGCAACTCCTGACAAGGGATTGAGAACTTTGCTGATGTGTATGGGAG AAGCATTGAGAACAATAGCTTTTAAAGTTAGAACAGCTTCTTGCGGTGGAACAGCTTGTGTTAA TTCCTTTGGTGATGAACAACTCGCTGTTGATATGCTTGCTGATAAGCTTCTCTTTGAGGTTTTT TGTTACATTTTGAATTAACTTATGTCATAAGCTTTGTATCAGAAAAATGGTTCATTAGGTTTTG ATTTGTGTATTGGTTTTATAGGCTTTGCAATACTCGCATGTGTGCAAGTATGCTTGCTCTGAAG AAGTACCTGAGCTTCAAGACATGGGAGGTCCAGTGGAAGGTTGGTTTTACATAAACTTAACTAA CATTTCCGCTTCTTTAAATCGCGCGAAAAATAGTTATCGAAAGAATATGAAATTTATTTGGACA GGTGGGTTTAGTGTTGCGTTTGATCCATTGGATGGATCAAGCATTGTGGATACAAATTTCACTG TGGGAACCATATTCGGTGTTTGGCCTGGAGACAAGTTAACCGGAATCACTGGAGGAGATCAAGT GGCTGCAGCCATGGGAATCTACGGTCCACGAACCACTTATGTTTTGGCTGTTAAGGGCTTTCCA GGAACTCATGAGTTCTTGCTTCTTGATGAAGGTTTTGGTCTAGTCCTGTTTTATCAAGATTCCT TCTTTGGTAAGCTTTTAAACTAAGCTCAAAATTTTGCCTCAGGGAAATGGCAGCATGTAAAGGA GACAACAGAGATCGCAGAAGGGAAAATGTTCTCACCAGGAAACTTAAGAGCCACATTCGACAAC TCCGAATACAGCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.263715199

Conservation Information
Conserved circRNAs	NA
PMCS	0.263715199

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT3G55800_circ_g.6

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